RnoEX0042390 @ rn6
Exon Skipping
Gene
ENSRNOG00000016613 | Hoxc4
Description
homeo box C4 [Source:RGD Symbol;Acc:1586210]
Coordinates
chr7:144647587-144650129:+
Coord C1 exon
chr7:144647587-144648452
Coord A exon
chr7:144648558-144648606
Coord C2 exon
chr7:144648928-144650129
Length
49 bp
Sequences
Splice sites
3' ss Seq
CCTTCCCCCTCTCTCTCCAGGAG
3' ss Score
13.7
5' ss Seq
TGGGTAATT
5' ss Score
6.19
Exon sequences
Seq C1 exon
AGGGCTTTATGGAGCAGAAAAACGACAAAGCGAGAAAAATTATTTTCCACTCCAGAAATTAATGATCATGAGCTCGTATTTGATGGACTCTAACTACATCGATCCGAAATTTCCTCCATGCGAAGAATATTCGCAAAATAGCTACATCCCTGAACACAGTCCGGAATATTACGGCCGGACCAGGGAATCGGGATTCCAGCATCACCACCAGGAGCTGTACCCACCACCGCCTCCGCGCCCTAGCTACCCTGAGCGTCAGTATAGCTGCACCAGTCTCCAGGGGCCCGGCAATTCGCGAGCCCACGGGCCGGCCCAGGCGGGCCACCACCACCCTGAGAAATCGCAGCCGCTCTGCGAGCCGGCGCCTCTCTCAGGCGCCTCTGCCTCCCCGTCCCCAGCCCCGCCAGCCTGCAGCCAGCCAGCCCCTGACCATCCCTCCAGCGCCGCCAGCAAGCAGCCCATAGTCTACCCTTGGATGAAAAAAATTCACGTTAGCACGG
Seq A exon
GAGCGACTCTGGGTTAGCACAATTGAACTGGATTTACGAGCGAGAATGG
Seq C2 exon
TGAACCCCAATTATAACGGAGGGGAGCCCAAGCGCTCGAGGACAGCCTACACCCGGCAGCAGGTCCTGGAATTAGAGAAAGAGTTTCATTACAACCGCTACCTGACCCGAAGGAGAAGGATCGAGATCGCCCACTCGCTGTGCCTCTCTGAGAGGCAGATCAAAATCTGGTTCCAAAACCGTCGCATGAAATGGAAGAAGGACCACCGACTCCCCAACACCAAAGTGAGGTCAGCGCCCCCGGCCGGCGCTGCACCCAGCACCCTCTCGGCAGCCACCCCCGGCACTTCTGAAGACCACTCCCAGAGCGCCACGCCGCCGGAGCAGCAACGGGCAGAGGACATCACCAGGTTATAAGACATAACTTACACCCCTGCCCCCACCCTGTGCTCCGTGCCCCCTCACACACAAATTGACTCTTATTTATAGAATTTAATATATATATATTTTTGGTTCTTTTTTTCTCTCTCTTCCTCCTGTCTCCTCCCTTGTCAGTTCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016613_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion (Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.793 A=1.000 C2=0.669
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0004624=Homeobox=WD(100=47.9)
Main Inclusion Isoform:
ENSRNOT00000022398fB6613
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCTGACCATCCCTCCAG
R:
GGGTGTAGGCTGTCCTCGAG
Band lengths:
132-181
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]